001/* 002 * BioJava development code 003 * 004 * This code may be freely distributed and modified under the 005 * terms of the GNU Lesser General Public Licence. This should 006 * be distributed with the code. If you do not have a copy, 007 * see: 008 * 009 * http://www.gnu.org/copyleft/lesser.html 010 * 011 * Copyright for this code is held jointly by the individual 012 * authors. These should be listed in @author doc comments. 013 * 014 * For more information on the BioJava project and its aims, 015 * or to join the biojava-l mailing list, visit the home page 016 * at: 017 * 018 * http://www.biojava.org/ 019 * 020 * Created on 01-21-2010 021 */ 022 023package org.biojava.nbio.core.sequence.io.template; 024 025import org.biojava.nbio.core.exceptions.CompoundNotFoundException; 026import org.biojava.nbio.core.sequence.template.AbstractSequence; 027import org.biojava.nbio.core.sequence.template.Compound; 028import org.biojava.nbio.core.sequence.template.ProxySequenceReader; 029 030import java.io.IOException; 031import java.util.List; 032 033/** 034 * 035 * @author Scooter Willis <willishf at gmail dot com> 036 */ 037public interface SequenceCreatorInterface<C extends Compound> { 038 /** 039 * 040 * @param sequence 041 * @param index 042 * @return 043 * @throws CompoundNotFoundException 044 * @throws IOException 045 */ 046 public AbstractSequence<C> getSequence(String sequence, long index) throws CompoundNotFoundException, IOException; 047 048 /** 049 * 050 * @param proxyLoader 051 * @param index 052 * @return 053 */ 054 public AbstractSequence<C> getSequence(ProxySequenceReader<C> proxyLoader, long index); 055 056 /** 057 * 058 * @param list 059 * @return 060 */ 061 public AbstractSequence<C> getSequence(List<C> list); 062 063}